Tag Archives: science bloggers

Friday SNPpets

Welcome to our Friday feature link dump: SNPpets. During the week we come across a lot of links and reads that we think are interesting, but don’t make it to a blog post. Here they are for your enjoyment…

  • A bit of a dust-up at ScienceBlogs as they added a corporate blog (Pepsi writing about nutrition science) and several of the bloggers left or threatened to leave. The Pepsi blog is no more. I hope that’s resolved, ScienceBlogs is an excellent collection of science writing. [Trey]
  • Pathway Tools Workshop 2010 held by the folks from BioCyc announced for October 21-25: http://bioinformatics.ai.sri.com/ptools10/ [Mary]
  • Animal portraiture against a white background. It’s been done before, this time with birds. It always reminds me how amazingly beautiful life can be. [Trey]
  • VectorBase announces that they have moved to the new style Ensembl browser with their current release–Yeah!  If you are interested in “Invertebrate Vectors of Human Pathogens”, this database may have species you want to know about. [Mary]
  • A good discussion about the recent ‘longevity gene’ study and it’s possible flaws by Razib Khan of Gene Expression [Trey]
  • Bandwidth-heavy, but really neat movies of tumor angiogenesis. You can open the Navigator menu to see the various movies listed, or you can migrate around the tumor yourself.  Hat tip to Jill!  [Mary]
  • On the GBrowse mailing list people were looking for examples of GBrowse 2.0 in action. WormBase indicated they are up to that version, and there was another research group with a species I never heard of before that also has it running: Gardnerella vaginalis.  They have compared 2 strains: one from a healthy woman, one suffering from infection. They show divergence, interestingly.  You can check out their recent publication on it from their publication tab.  A nice demonstration of how to use GBrowse for your species of interest. [Mary]

Data and how to handle it – biocuration and beyond

female_computer_idea.jpgI was enjoying a wonderfully wet, gray autumn day – you know the kind – just perfect for curling up and reading a good book with a hot cup of tea. I figured I’d just indulge in a little break from writing & revising drafts of tutorials and publications. I was going to allow myself one Nature article – “The future of biocuration“, which I’ve been meaning to read since it came. The article was written by several biocurators and describes the exponential growth in the amount of available biological data and proposes three urgent actions:

1. collaboration among authors, journals and curators to expedite the exchange of data between databases and journal publications

2. development of a recognition structure that encourages community curation

3. establishment of scientific curation as an accepted professional career

computer_information.jpgThe article makes a lot of good points, and I highly recommend you read it if you are interested in the future of databases at all. But as I began reading, I couldn’t stop. The special feature of this whole issue of Nature is ‘Big Data: Science in the petabyte era’. I really think Nature did a great job of finding and presenting many many points of view on the subject of big data – some that I’ve been thinking about as I register for upcoming meetings – and some I’ve never considered, but can now see how they make so much sense…

Continue reading